# library(devtools)
# install_git("http://github.com/RGLab/MASTDataPackage")
# install_git('http://github.com/RGLab/MAST')
## Warning: replacing previous import by 'reshape::melt' when loading 'MAST'
## Warning: package 'S4Vectors' was built under R version 3.2.1
zlm <- zlm.SingleCellAssay(~condition + cngeneson, sca, method = "bayesglm",
ebayes = TRUE, ebayesControl = list(method = "MLE", model = "H1"))
## Mean % Deviance
| dataset | component | V1 |
|---|---|---|
| mdc | C | 1.650106 |
| mdc | D | 4.869932 |
| MAIT | C | 4.135422 |
| MAIT | D | 5.282912 |
## % Deviance 90th Percentile
| dataset | component | 90% |
|---|---|---|
| mdc | C | 4.392776 |
| mdc | D | 9.364816 |
| MAIT | C | 10.816661 |
| MAIT | D | 13.380499 |
Top 100 DE genes between stimulated and non-stimulated MAIT cells.
Some of the activated MAITs have transcriptional profiles more similar to unactivated MAITS.
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| egid | chrmap | symbol |
|---|---|---|
| 1831 | Xq22.3 | TSC22D3 |
| 5716 | Xq22.3 | PSMD10 |
| 122704 | 14q11.2 | MRPL52 |
| 3002 | 14q11.2 | GZMB |
| 51102 | 1p35.3 | MECR |
| 93974 | 1p35.3 | ATPIF1 |
## [1] 5.956767 3.843590
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## mac version of flowJo workspace recognized.
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